Visium
Human colon
GSM9340374
silver Interactive viewer H&E ✓ Verified publication
print(sdata)
SpatialData object
├── Images
│ ├── 'GSM9340374_SITSF7_full_image': DataTree[cyx] (3, 3000, 3000), (3, 1500, 1500), (3, 750, 750), (3, 375, 375), (3, 187, 187)
│ ├── 'GSM9340374_SITSF7_hires_image': DataArray[cyx] (3, 2000, 2000)
│ └── 'GSM9340374_SITSF7_lowres_image': DataArray[cyx] (3, 600, 600)
├── Shapes
│ └── 'GSM9340374_SITSF7': GeoDataFrame shape: (9890, 2) (2D shapes)
└── Tables
└── 'table': AnnData (9890, 18085)
with coordinate systems:
▸ 'GSM9340374_SITSF7', with elements:
GSM9340374_SITSF7_full_image (Images), GSM9340374_SITSF7_hires_image (Images), GSM9340374_SITSF7_lowres_image (Images), GSM9340374_SITSF7 (Shapes)
▸ 'GSM9340374_SITSF7_downscaled_hires', with elements:
GSM9340374_SITSF7_hires_image (Images), GSM9340374_SITSF7 (Shapes)
▸ 'GSM9340374_SITSF7_downscaled_lowres', with elements:
GSM9340374_SITSF7_lowres_image (Images), GSM9340374_SITSF7 (Shapes) Load in Python
import lamindb as ln
db = ln.DB("scverse/spatialdata-db")
artifact = db.Artifact.get("p2dczaEpp7jiUMaC") # latest version
sdata = artifact.load() # cache, then load into memory
group = artifact.open() # stream without downloading
path = artifact.cache() # sync into the local cache, returns the path Load from the CLI
# one-shot: cache the dataset and print its local path
lamin load https://lamin.ai/scverse/spatialdata-db/artifact/p2dczaEpp7jiUMaC
# or connect once, then load by uid
lamin connect scverse/spatialdata-db
lamin load artifact --uid p2dczaEpp7jiUMaC Load with the Python client
# pip install git+https://github.com/theislab/spatialdata-db-client
from sddb import Catalog
ds = Catalog().cohort(uids=["p2dczaEpp7jiUMaC0000"])[0]
ds.elements() # inspect without downloading
sdata = ds.load(lazy=False) # copy to the local cache and openPart of collection
Clonal biases dictate availability of colonic cancer driver mutations for transformation→ 20 datasets · other
Metadata
- Technology
- Visium
- Organism
- human
- Tissue
- colon
- Modality
- RNA
- Observations
- 9,890
- Tier
- silver
- Chemistry
- Visium CytAssist v2
- Resolution
- 3,000 × 3,000 px
- mpp
- 4.296 µm/px
- Size
- 160 MB
- Sample ID
- GSM9340374
- License
- CC BY 4.0
- Published
- Feb 10, 2026
Cite this dataset
doi.org/10.1038/s41467-026-71944-5 ↗ BibTeX
@article{Skoufou_Papoutsaki_2026,
title = {Clonal biases dictate availability of colonic cancer driver mutations for transformation},
volume = {17},
ISSN = {2041-1723},
url = {http://dx.doi.org/10.1038/s41467-026-71944-5},
DOI = {10.1038/s41467-026-71944-5},
number = {1},
journal = {Nature Communications},
publisher = {Springer Science and Business Media LLC},
author = {Skoufou-Papoutsaki, Nefeli and Kemp, Richard and Adler, Sam and Marks, Kate and Girard, Anne-Claire and Mehmed, Shenay and Lourenço, Filipe C. and Moutin, Elisa B. and Ten Hoopen, Rogier and Morrissey, Edward and Winton, Douglas J. and Tourigny, David S.},
year = {2026},
month = Apr
}Source: NCBI GEO ↗ · License: CC BY 4.0 ↗ · Reprocessed to SpatialData by SpatialData-DB